plotMA {codelink} | R Documentation |
Takes a Codelink object and plot M vs A.
plotMA(object, array1=1, array2=2, cutoff=NULL, label="type", type=NULL, high.list=NULL, high.col="blue", high.pch="*", snr.cutoff=1, legend.x="bottomright", pch=".", subset=NULL, title=NULL, xlim=NULL, ylim=NULL)
object |
an object of class "Codelink" or "MAarrayLM". |
array1 |
first array to be used. |
array2 |
second array to be used. |
cutoff |
cutoff to be used as fold change markeer. |
label |
type of labeling used in legend. |
type |
spot type information. |
high.list |
list of genes highlighted. |
high.col |
color used for high genes. |
high.pch |
pch used for high genes. |
snr.cutoff |
SNR cutoff used for label spots. |
legend.x |
relative position of the legend. |
pch |
pch style used to main spots. |
subset |
subset of spots used to plot based on 'type' slot. |
title |
title of the plot. |
xlim |
range for the X axis. |
ylim |
range for the Y axis. |
The plot is for M=(array2-array1) vs A=(array2+array1)/2.
Diego Diez
# data(codelink.example) # plotMA(codelink.example)